ECM1 (extracellular matrix protein 1)

2014-09-01   Piedad C Gomez-Contreras , Geeta Lal 

Identity

HGNC
LOCATION
1q21.3
LOCUSID
ALIAS
URBWD
FUSION GENES

DNA/RNA

Atlas Image
A. ECM1 DNA. B. ECM1 transcripts.

Description

The gene was initially described as having 10 exons. Afterwards an alternative spliced exon 5a was detected (Johnson et al., 1997).

Transcription

Four transcripts are described of which three transcripts have been identified by Northern blot analysis and 1 by PCR (Smits et al., 2000).
ECM1a (lacks exon 5a, 1.8 kb); ECM1b (exon 5a and exon 7 are missing, 1.4 kb); ECM1c (contains exon 5a, 1.85 kb); ECM1d (splice variant in which 71 bp of the 3 end of intron 1 are transcribed, resulting in a truncated 57 aa protein, only detected by PCR, DQ010946).

Proteins

Atlas Image
Schematic representation of ECM1 and its four splice variants. ECM1 protein is divided in a signal sequence (19 aa) (black box) and four different domains based on the presence or absence of cysteines: an N-terminal cysteine-free domain (white box), two tandem repeats (green and gray box), and a C-terminal region (blue box). ECM1c differs from ECM1a containing 19 aa encoded by exon 5a, ECM1b results from an alternative trancript caused by splicing out exon 7 (shaded black). ECM1d encodes a truncated protein composed of 57 aa containing exon 1, exon 2 and a part of exon 3.

Expression

ECM1a is widely expressed in liver, small intestines, lung, ovary, prostate, testis, skeletal muscle, pancreas, kidney, placenta, heart, basal keratinocytes, dermal blood vessels, and adnexal epithelia including hair follicles and sweat glands (Smits et al., 1997). ECM1 overexpression has also been identified in corneal epithelium (Turner et al., 2007) and epididymal tissue. In the latter, it has been proposed as a potential biomarker to distinguish obstructive from non-obstructive azoospermia based on the analysis of levels of the protein in seminal fluid (Drabovich et al., 2013).
ECM1b is detectable in tonsils and the spinous and granular layers of the epidermis.
ECM1c is expressed in the basal layer of the epidermis. ECM1 expression in human skin is regulated by age and ultraviolet light exposure and as such, may be a cutaneous stress response (Sander et al., 2006).
Important remark: ECM1 antibodies available to detect ECM1 protein are not able to discriminate between ECM1a and ECM1c.
ECM1d: expression pattern is not known yet.

Localisation

Ultrastructurally, ECM1a/c is a basement membrane protein in human skin and is part of network-like suprastructures containing perlecan (Mongiat et al., 2003), collagen type IV and laminin 332 as constituents.

Function

The exact biological function of ECM1 is not elucidated yet, but evidence for its involvement in important biophysiological processes, like skin differentiation, endochondral bone formation and angiogenesis have now emerged. ECM1 inhibits the hypertrophy of chondrocytes as well as mineralization of the matrix and endochondral bone formation. In the broader context of skin biology, ECM1 appears to have many functions and particular a biological super-glue action has been hypothesized. ECM1 also appears to have a role in regulating migration of type 2 helper T cells (Li et al., 2011).

Homology

Homology and protein-protein interactions: a computationally predicted three-dimensional structure of ECM1a is depicted below.
Based on the third serum albumin domain ECM1a protein can be divided into four domains. The first domain containing alpha-helices (alphaD1) and three serum albumin subdomain-like domains (SASDL 2-4), each of three sequences comparable with a complete subdomain of the third serum albumin domain. AlphaD1 exits only of Alpha-helices, whereas SASDL2 and -3 are capable of binding most of the extracellular matrix proteins identified so far (collagen type IV, laminin 332, fibronectin, perlecan, fibulin 1C/D, fibulin-3 and MMP-9) (Sercu et al., 2009; Sercu et al., 2008; Fujimoto et al., 2005). Other cDNA clones known to react with ECM1 fragments in (yeast two-hybrid asays) include legumain, human insulin-like growth factor, epidermal growth factor, human chorionic somatomammotropin, human alpha 2 hemoglobin, NADH dehydrogenase and ubiquinone (Fujimoto et al., 2006).
ECM1 also binds COMP (cartilage oligometric matrix protein) both in vitro and in vivo via the COMP EGF domain (Kong et al., 2010). In addition, ECM1 also binds the type II transmembrane protein PLSCR1 (phospholipid scramblase 1) via its tandem repeat region (Merregaert et al., 2010).
Atlas Image
Computationally predicted three-dimensional structure of ECM1a.

Mutations

Note

Mutations were described in lipoid proteinosis (LiP; OMIN#247100), also known as hyalinosis cutis et mucosae or Urbach-Wiethe disease. This is a rare, autosomal recessive disorder characterized by generalized thickening of skin, mucosae, and certain viscera. Histologically, there is widespread deposition of hyaline (glycoprotein) material and disruption/reduplication of basement membrane. Classic features include beaded eyelid papules and laryngeal infiltration leading to hoarseness. More than 40 distinct missense, nonsense, splice site, small and large deletions and insertions have been reported, as summarized in Table 1. Approximately 50% of the mutations cluster to exon 6 and 7 of the gene. Examining the immunostaining pattern of skin biopsies using anti-ECM1 antibody can be used for the rapid diagnosis of LiP (Chan et al., 2004c).
Atlas Image
Table 1. Summary of ECM1 mutations in lipoid proteinosis.

Implicated in

Entity name
Various cancers
Note
A survey of ECM1 expression in different tumors indicated that ECM1, although not tumor specific, is significantly elevated in many malignant epithelial tumors that gave rise to metastases (Wang et al., 2003). ECM1 overexpression has been described in cancers of the breast, thyroid (Lal et al., 2008; Kebebew et al., 2005; Pauws et al., 2004) and head and neck squamous cell carcinomas (HNSCC), specifically, laryngeal carcinomas. Other carcinomas with increased ECM1 expression include hepatocellular carcinoma, cholangiocarcinomas, cutaneous melanoma cell lines (Lal et al., 2013) and gastric carcinomas (Wu et al., 2014).
In addition, ECM1 upregulation has been associated with poor prognosis and metastases in breast (Lal et al., 2009), laryngeal (Gu et al., 2013; Han et al., 2006), hepatocellular (Chen et al., 2011), gastric and cholangiocarcinomas (Xiong et al., 2012). ECM1 expression also appears to be a predictor of primary uveal melanoma metastasis in a study using microarray expression (Onken et al., 2010).
Together with the observation that human recombinant ECM1 stimulates proliferation of cultured endothelial cells and promotes blood vessel formation in the chorioallantoic membrane of chicken embryos suggest that ECM1 is a possible trigger for angiogenesis, tumor progression and malignancies (Han et al., 2001). ECM1 has been correlated with elevated lymphatic and microvessel density in laryngeal (Han et al., 2006) and gastric tumors (Wu et al., 2014) and also correlated with estrogen responsiveness in breast cancer. In the latter ECM1 expression also correlates with VEGF-C suggesting that they may have a synergistic effect on lymphangiogenesis and facilitation of lymphatic metastases (Wu et al., 2012). In cholangiocarcinomas, ECM1 expression is also correlated with expression the tumor marker CA19-9, MMP-9 and the estrogen receptor (Xiong et al., 2012).
ECM1 also appears to play a role in the migration, invasion and attachment properties of cancer cells, as seen in studies of cholangiocarcinoma and melanoma cell lines (Xiong et al., 2012; Lal et al., 2013).
Overexpression of ECM1 in cancer cells appears to be mediated by the Akt/NF-κB signaling axis (Xiong et al., 2012). ECM1 expression is also partly regulated by transcription factor AP2C (TFAP2C) in melanoma cells, and its effect is mediated by direct interaction with the ECM1 promoter (Lal et al., 2013).
Entity name
Lipoid proteinosis
Disease
Lipoid proteinosis, also known as hyalinosis cutis et mucosae or Urbach-Wiethe disease.
Lipoid proteinosis is a rare autosomal recessive genodermatosis characterized by the deposition of an amorphous hyaline material in the skin, mucosa, and viscera. Papular infiltration of the margin of the lids producing itchy eyes, and infiltration in the tongue and its frenulum, in the larynx leading to hoarseness, and in the skin (e.g., elbows and axilla) are characteristic (Hamada et al., 2003; Hamada et al., 2002).
Entity name
Lichen sclerosus et atrophicus
Disease
Lichen sclerosus (LS) is a chronic inflammatory skin disorder of unknown etiology that results in white plaques with epidermal atrophy. It has both genital and extragenital presentations. HLA-subtype susceptibility and high rates of other autoimmune disorders suggest that autoantibodies to specific mucocutaneous antigens may be involved in the etiology of lichen sclerosus. The similarities with lipoid proteinosis, which results from mutations in the ECM1 gene, suggested that this protein may be an autoantigen in lichen sclerosus. Indeed, circulating auto-antibodies to ECM1 were found in the sera of 67% of lichen sclerosus patients (Oyama et al., 2003; Oyama et al., 2004).
In conclusion lipoid proteinosis and lichen sclerosus are immunogenetic counterparts targeting ECM1.
Entity name
Ulcerative colitis
Note
A nonsynonymous SNP (rs11205387) has been associated with ulcerative colitis (Fisher et al., 2008). ECM1 variation was not associated with Crohns disease (Anderson et al., 2009). Incorporation of the analysis of ECM1 genetic variants into a diagnostic algorithm including serological and inflammatory markers resulted in improved accuracy in identifying inflammatory bowel disease and in particular, differentiating between ulcerative colitis and Crohns disease (Plevy et al., 2013).

Bibliography

Pubmed IDLast YearTitleAuthors

Other Information

Locus ID:

NCBI: 1893
MIM: 602201
HGNC: 3153
Ensembl: ENSG00000143369

Variants:

dbSNP: 1893
ClinVar: 1893
TCGA: ENSG00000143369
COSMIC: ECM1

RNA/Proteins

Gene IDTranscript IDUniprot
ENSG00000143369ENST00000346569Q16610
ENSG00000143369ENST00000369047Q16610
ENSG00000143369ENST00000369047A0A140VJI7
ENSG00000143369ENST00000369049Q16610

Expression (GTEx)

0
100
200
300
400
500
600
700
800
900
1000

Pathways

PathwaySourceExternal ID
HemostasisREACTOMER-HSA-109582
Platelet activation, signaling and aggregationREACTOMER-HSA-76002
Response to elevated platelet cytosolic Ca2+REACTOMER-HSA-76005
Platelet degranulationREACTOMER-HSA-114608

Protein levels (Protein atlas)

Not detected
Low
Medium
High

References

Pubmed IDYearTitleCitations
184384062008Genetic determinants of ulcerative colitis include the ECM1 locus and five loci implicated in Crohn's disease.134
208054532010Molecular anatomy of breast cancer stroma and its prognostic value in estrogen receptor-positive and -negative cancers.81
190682162009Investigation of Crohn's disease risk loci in ulcerative colitis further defines their molecular relationship.53
200140192010Genome wide association (GWA) predictors of anti-TNFalpha therapeutic responsiveness in pediatric inflammatory bowel disease.41
145509532003Extracellular matrix protein 1 (ECM1) is over-expressed in malignant epithelial tumors.33
242590482013Differential diagnosis of azoospermia with proteomic biomarkers ECM1 and TEX101 quantified in seminal plasma.33
179275702007The molecular basis of lipoid proteinosis: mutations in extracellular matrix protein 1.29
126038442003Extracellular matrix protein 1 gene (ECM1) mutations in lipoid proteinosis and genotype-phenotype correlation.26
257460012015ECM1 regulates tumor metastasis and CSC-like property through stabilization of β-catenin.26
182000622008Interaction of extracellular matrix protein 1 with extracellular matrix components: ECM1 is a basement membrane protein of the skin.23

Citation

Piedad C Gomez-Contreras ; Geeta Lal

ECM1 (extracellular matrix protein 1)

Atlas Genet Cytogenet Oncol Haematol. 2014-09-01

Online version: http://atlasgeneticsoncology.org/gene/40398/favicon/teaching-explorer/js/lib/bootstrap.min.js

Historical Card

2009-10-01 ECM1 (extracellular matrix protein 1) by  Joseph Merregaert,Wim Van Hul 

Laboratory of Molecular Biotechnology, Department of Biomedical Sciences, University of Antwerp, Universiteitsplein 1, 2610 Wilrijk\\\/Antwerp, Belgium